Posts by Fat.eldefrawy

... Hello Jen,
Thanks for the kind response,
I have used galGal4 ( from iGenome) as reference annotation and also used galGal4 as a reference genome but still get the error reference annotation., Does the archiving time version of galGal4 may make mismatch? as galGal4 annotation (iGenom) has 3 archiv ...

... Hi everybody,
I was using Tophat last week it was a little bit fast, now I'm trying to run a job with the same data set have been used last week, but the job hanged without any progress. this also occurs when running cufflink jobs
I rerun the jobs many times, unfortunately, wasn't lucky.
any explana ...

... Hello everybody,
I'm very new in RNA seq analysis I have run cuffdiff on 3 condition dataset collections( each collection has 4 replicates) using GALAXY with the cufmerg GTF file, but I got an error, I have repeated the same job many and many times, unfortunately, got the same result. I couldn't un ...

... Hi Agrant,
I have the same problem with cuffdiff (loading reference annotation" and "Inspecting maps and determining fragment length distributions) as you had, my data is 3 conditions each condition 4 replicates and the total size of all of acc hit files around 19 gb,
How did you figure out this pr ...

... I have tried to deselect SQLite optional output. but still facing the same problem, I sent a bug report but really I couldn't understand what error information means, I don't have any experience on the command line, please check that
Job Execution and Failure Information Command Line cuffdiff --no- ...

... I have tried to deselect SQLite optional output. but still facing the same problem, I sent a bug report but really I couldn't understand what error information means, I don't have any experience on the command line, please check that
Job Execution and Failure Information
Command Line
cuffdiff --n ...

... Hello everyone,
I'm very new in RNA seq analysis
I have run cuffdiff on 3 condition dataset collections( control and 2 different treatment groups) using GALAXY, then I got an error, I have repeated the same job many times, unfortunately, I got the same result.
Fatal error: Exit code 1 ()
...